Set dtype of strain column in sequence index

Sets the dtype of the strain column in the sequence index to "string" prior to annotating metadata with that index. This change prevents pandas from inferring the dtype as numeric when strain names are all numeric. Fixes #948
nextstrain · Aug 5, 2022 · 38b4d52 · 38b4d52
1 parent 01a0dd2
commit 38b4d52
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/scripts/annotate_metadata_with_index.py b/scripts/annotate_metadata_with_index.py
@@ -18,6 +18,7 @@
     index = pd.read_csv(
         args.sequence_index,
         sep="\t",
+        dtype={"strain": "string"}
     ).drop(
         columns=["length"],
     )